7NRA

The structure of the SBP TarP_Sse in complex with cinnamate


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7NR2 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.52901.6 M tri-sodium citrate
Crystal Properties
Matthews coefficientSolvent content
2.5952.43

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.12α = 90
b = 70.2β = 93.12
c = 85.01γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-05-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.9500DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.9164.0298.60.0920.0799.93.257762
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.911.9699.80.5590.412.13.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE7NR21.9164.0257745285298.4990.2030.20010.260830.818
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-1.6060.697-1.282.793
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.387
r_scbond_other30.107
r_scbond_it30.104
r_mcbond_it26.186
r_mcbond_other26.076
r_lrange_it25.039
r_lrange_other25.037
r_scangle_other24.941
r_scangle_it24.94
r_mcangle_other21.818
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.387
r_scbond_other30.107
r_scbond_it30.104
r_mcbond_it26.186
r_mcbond_other26.076
r_lrange_it25.039
r_lrange_other25.037
r_scangle_other24.941
r_scangle_it24.94
r_mcangle_other21.818
r_mcangle_it21.789
r_dihedral_angle_4_deg18.995
r_dihedral_angle_3_deg14.293
r_dihedral_angle_1_deg7.12
r_angle_refined_deg1.509
r_angle_other_deg1.315
r_nbd_other0.229
r_symmetry_xyhbond_nbd_refined0.225
r_symmetry_nbd_refined0.221
r_nbd_refined0.203
r_symmetry_nbd_other0.173
r_nbtor_refined0.161
r_xyhbond_nbd_refined0.151
r_symmetry_xyhbond_nbd_other0.082
r_symmetry_nbtor_other0.077
r_chiral_restr0.072
r_gen_planes_other0.011
r_gen_planes_refined0.01
r_bond_refined_d0.007
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5015
Nucleic Acid Atoms
Solvent Atoms277
Heterogen Atoms22

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing